Gene detail

Detailed information of OS493_027703-T1 in Lophelia pertusa

Genomic Location: scaffold_153:173066...192226
NR annotation: KAJ7377626.1, DALR anticodon-binding domain-containing protein 3 [Desmophyllum pertusum]
Species Lophelia pertusa · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
A0JML8	DALR anticodon-binding domain-containing protein 3 OS=Danio rerio OX=7955 GN=dalrd3 PE=2 SV=1
Q5D0E6	DALR anticodon-binding domain-containing protein 3 OS=Homo sapiens OX=9606 GN=DALRD3 PE=1 SV=2
Q6PJN8	DALR anticodon-binding domain-containing protein 3 OS=Mus musculus OX=10090 GN=Dalrd3 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0004627 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF05746 all species →	DALR_1	DALR anticodon binding domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR009080 all species →	Homologous_superfamily	Aminoacyl-tRNA synthetase, class Ia, anticodon-binding	Interproscan
IPR037380 all species →	Family	DALR anticodon-binding domain-containing protein 3	Interproscan
IPR008909 all species →	Domain	DALR anticodon binding	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR16043 all species →	DALRD3 PROTEIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0000166 all species →	Molecular Function	nucleotide binding	Interproscan
GO:0004812 all species →	Molecular Function	aminoacyl-tRNA ligase activity	Interproscan
GO:0005524 all species →	Molecular Function	ATP binding	Interproscan
GO:0006418 all species →	Biological Process	tRNA aminoacylation for protein translation	Interproscan
GO:0000049 all species →	Molecular Function	tRNA binding	Interproscan
GO:0106217 all species →	Biological Process	tRNA C3-cytosine methylation	Interproscan
GO:0004814 all species →	Molecular Function	arginine-tRNA ligase activity	Interproscan
GO:0006420 all species →	Biological Process	arginyl-tRNA aminoacylation	Interproscan

Search by domain instead of by gene. Any accession above (InterPro, Pfam, PANTHER, GO, KEGG) can be used as a query on the Functional Domain Search page, which searches all 148 annotated genomes at once.

KEGG pathway

KO	Enzyme	Enzyme ID	Pathway	Map ID	Source
K24973	DALRD3; DALR anticodon-binding domain-containing protein 3	-	Transfer RNA biogenesis	ko03016	deepkoala

Searching by KO or pathway ID across all species is available on the KEGG Pathway page.

Expression pattern (RNA-seq)

Transcript abundance of OS493_027703-T1 across 110 RNA-seq samples of Lophelia pertusa. Values are TPM (transcripts per million) from the StringTie quantification; one bar is one sample, grouped and coloured by condition, sorted by expression within each group.

110Samples

106TPM > 0

7Conditions

4.4Max TPM

1.9Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	2.03	3.25
polyp at pH7 6	18	16	2.00	3.89
coral polyp · control treatment	16	16	2.08	3.69
coral polyp · oil and dispersant treatment	16	15	1.25	2.22
coral polyp · oil treatment	16	16	2.17	4.13
coral polyp · dispersant treatment	16	16	2.24	4.37
Polyp	10	9	1.56	2.75

Per sample · hover a bar for the full sample record · show / hide the sample table

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.25
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.06
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.79
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.67
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.55
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.49
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.34
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.30
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.21
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.16
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.67
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.60
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.56
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.47
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.35
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.33
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.26
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.49
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.89
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.20
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.18
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.11
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.00
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.76
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.32
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.19
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.00
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.82
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.79
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.77
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.76
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.62
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.12
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.50
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.69
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.54
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.34
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.82
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.80
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.69
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.40
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.99
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.83
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.82
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.25
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.19
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.18
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.11
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.02
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.56
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.22
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.16
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.10
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.66
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.58
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.42
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.33
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.11
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.08
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.03
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.01
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.91
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.89
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.80
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.70
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.13
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.98
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.31
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.22
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.22
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.17
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.14
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.11
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.05
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.96
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.59
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.56
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.43
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.14
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.12
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.65
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.37
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.88
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.76
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.57
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.53
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.50
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.46
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.28
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.27
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.66
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.34
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.03
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.98
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.44
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.37
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.35
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	2.75
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	2.32
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	1.96
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	1.63
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	1.50
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	1.47
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	1.32
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	1.32
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	1.29
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	0.00

Source: CnidoSite RNA-seq expression matrices (LPERT_TPM, StringTie quantification over 110 runs), joined to SRA sample metadata. Samples whose tissue/treatment is not recorded in the source metadata are grouped by the descriptor carried in the expression matrix itself.